&lt;b&gt;Bacterial diversity in bovine rumen by metagenomic 16S rDNA sequencing and scanning electron microscopy

Raphael Barbetta De Jesus,Eliana Gertrudes De Macedo Lemos,Jackson Antônio Marcondes De Souza,Wellington Pine Omori

doi:10.4025/actascianimsci.v37i3.26535

<b>Bacterial diversity in bovine rumen by metagenomic 16S rDNA sequencing and scanning electron microscopy

Raphael Barbetta De Jesus, Eliana Gertrudes De Macedo Lemos + Show 2 more

Open Access

https://doi.org/10.4025/actascianimsci.v37i3.26535

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Abstract

The bacterial diversity by 16S rDNA partial sequencing and scanning electron microscope (SEM) of the rumen microbiome was characterized. Three Nellore bovines, cannulated at the rumen, were utilized. Liquid and solid fractions from the rumen content were processed for the extraction of metagenomic DNA and later 16S rDNA amplicons were utilized to construct the WGA library for further clone sequencing. Data were analyzed by MEGA and MOTUR (University of Michigan) softwares. Approximately 97.96% of operation taxonomic units (OTUs) were related to Bacteriodetes phylum and 2.04% of sequences were affiliated to Firmicutes phylum. In the case of Bacteriodetes, the great part of sequences (47.96%) was attributed to Prevotella genus. Bacteroidetes phylum was predominant in rumen content and the Prevotella genus was the most abundant, including diverse species related to this taxon. The bacterial morphological diversity associated to plant fibers was detected by SEM and showed its role in plant biomass deconstruction beyond the detection of microbiological interactions that involved protozoa

Highlights

The demand for greater efficiency in the production of ruminants is limited by the lack of information on rumen microbiota which damages the effective improvement of fermentative digestion
The rumen environment is colonized by thousands of microorganisms which belong to the three dominions (Woese et al, 1990), namely: Bacteria, Archaea and Eucarya
Since several genetic and environmental aspects contribute towards the co-evolution between the ruminant and its rumen microbiota, the importance of the genetic heritage of Nellore cattle and its role as supplier of food resources, current analysis characterizes the rumen’s bacterial diversity by the partial sequencing of total 16S rDNA and Scanning Electron Microscopy (SEM)

Summary

Introduction

The demand for greater efficiency in the production of ruminants is limited by the lack of information on rumen microbiota which damages the effective improvement of fermentative digestion. 251-257, July-Sept., 2015 such as isolation, nutritional characterization and cell numbering (McSweeney & Mackie, 2012). These traditional techniques provide only a limited access to the diversity of microorganisms. Since several genetic and environmental aspects contribute towards the co-evolution between the ruminant and its rumen microbiota, the importance of the genetic heritage of Nellore cattle and its role as supplier of food resources, current analysis characterizes the rumen’s bacterial diversity by the partial sequencing of total 16S rDNA and Scanning Electron Microscopy (SEM)

Material and methods

Results and discussion

Conclusion